| Literature DB >> 19164095 |
Lei He1, Konstandinos Vasiliou, Daniel W Nebert.
Abstract
The solute-carrier gene (SLC) superfamily encodes membrane-bound transporters. The SLC superfamily comprises 55 gene families having at least 362 putatively functional protein-coding genes. The gene products include passive transporters, symporters and antiporters, located in all cellular and organelle membranes, except, perhaps, the nuclear membrane. Transport substrates include amino acids and oligopeptides, glucose and other sugars, inorganic cations and anions (H(+), HCO(3)(-), Cl(-), Na(+), K(+), Ca(2+), Mg(2+), PO(4)(3-), HPO(4)(2-), H(2)PO(4)(-), SO(4)(2-), C(2)O(4)(2-), OH(-), CO(3)(2-)), bile salts, carboxylate and other organic anions, acetyl coenzyme A, essential metals, biogenic amines, neurotransmitters, vitamins, fatty acids and lipids, nucleosides, ammonium, choline, thyroid hormone and urea. Contrary to gene nomenclature commonly assigned on the basis of evolutionary divergence (http://www.genenames.org/), the SLC gene superfamily has been named based largely on transporter function by proteins having multiple transmembrane domains. Whereas all the transporters exist for endogenous substrates, it is likely that drugs, non-essential metals and many other environmental toxicants are able to 'hitch-hike' on one or another of these transporters, thereby enabling these moieties to enter (or leave) the cell. Understanding and characterising the functions of these transporters is relevant to medicine, genetics, developmental biology, pharmacology and cancer chemotherapy.Entities:
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Year: 2009 PMID: 19164095 PMCID: PMC2752037 DOI: 10.1186/1479-7364-3-2-195
Source DB: PubMed Journal: Hum Genomics ISSN: 1473-9542 Impact factor: 4.639
Human SLC gene superfamily, including description of the gene products
| Protein | Description | Number of | Pfam | Domain | GenBank |
|---|---|---|---|---|---|
| SLC1 | High-affinity glutamate and neutral amino acid transporter family | 7 | PF00375 | SDF | |
| SLC2 | Facilitative glucose transporter (GLUT) family | 14; 5 pseudo | PF00083 | Sugar_tr | |
| SLC3 | Heavy subunits of the heteromeric amino acid transporters | 2 | PF00128 | Alpha-amylase | |
| SLC4 | Bicarbonate transporter family | 10 | PF07565 | Band_3_cyto | |
| PF00955 | HC03_cotransp | ||||
| SLC5 | Na+/glucose co-transporter family | 12 | PF00474 | SSF | |
| SLC6 | Na+- and Cl--dependent neurotransmitter symporter family | 19; 3 pseudo | PF00209 | SNF | |
| SLC7 | Cationic amino acid transporter/glycoprotein- associated amino acid transporter family | 14; 1 pseudo | PF00324 | AA_permease | |
| SLC8 | Na+/Ca2+ exchanger family | 3 | PF03160 | Na_Ca_ex | |
| PF01699 | Calx_eta | ||||
| SLC9 | Na+/H+ exchanger family | 11; 4 pseudo | PF00999 | Na_H_Exchanger | |
| SLC10 | Na+/bile salt co-transporter family | 7 | PF01758 | SBF | |
| SLC11 | Proton-coupled metal ion transporter family | 2 | PF01566 | Nramp | |
| SLC12 | Electroneutral cation/Cl- co-transporter family | 9 | PF00324 | AA_permease | |
| PF08403 | |||||
| SLC13 | Na+/SO42-/carboxylate co-transporter family | 5 | PF00939 | Na_sulph_symp | |
| SLC14 | Urea transporter family | 2 | PF03253 | UT | |
| SLC15 | Proton oligopeptide co-transporter family | 4 | PF00854 | PTR2 | |
| SLC16 | Monocarboxylate transporter family | 14 | PF07690 | MFS_1 | |
| SLC17 | Vesicular glutamate transporter family | 8 | PF07690 | MFS_1 | |
| SLC18 | Vesicular amine transporter family | 3 | PF07690 | MFS_1 | |
| SLC19 | Folate/thiamine transporter family | 3 | PF01770 | Folate_carrier | |
| SLC20 | Type-III Na+/H2PO4- co-transporter family | 2; 1 pseudo | PF01384 | PH04 | |
| SLC22 | Organic cation/anion/zwitterion transporter family | 23 | PF07690 | MFS_1 | |
| SLC23 | Na+-dependent ascorbic acid transporter family | 4 | PF00860 | Xan_ur_permease | |
| SLC24 | Na+/Ca2+ and Na+/K+ exchanger family | 6 | PF01699 | Na_Ca_ex | |
| SLC25 | Mitochondrial carrier family | 43; 4 pseudo | PF00153 | Mito_carr | |
| SLC26 | Multifunctional anion exchanger family | 11 | PF01740 | Sulfate_transp | |
| PF00916 | STAS | ||||
| SLC27 | Fatty acid transport protein family | 6 | PF00501 | AMP-binding | |
| SLC28 | Na+-coupled nucleoside transport family | 3 | PF07670 | Gate | |
| PF07662 | Nucleos_tra2_C | ||||
| PF01773 | |||||
| SLC29 | Facilitative nucleoside transporter family | 4 | PF01733 | Nucleoside_tran | |
| SLC30 | Zn2+ efflux family | 10 | PF01545 | Cation_efflux | |
| SLC31 | Copper transporter family | 2; 1 pseudo | PF04145 | Ctr | |
| SLC32 | Vesicular inhibitory amino acid transporter family | 1 | PF01490 | Aa_trans | |
| SLC33 | Acetyl coenzyme A transporter family 22 | 1 | IPR004752 | 2A0125 | |
| SLC34 | Type-II Na+/HPO42- co-transporter family | 3 | PF02690 | Na_Pi_cotrans | |
| SLC35 | Nucleoside-sugar transporter family | 23 | PF04142 | Nuc_sug_transp | |
| SLC36 | Proton-coupled amino acid transporter family | 4 | PF01490 | Aa_trans | |
| SLC37 | Sugar-PO43-/PO43- exchanger family | 4 | PF07690 | MFS_1 | |
| SLC38 | System A & N, Na+-coupled neutral amino acid transporter family | 11 | PF01490 | Aa_trans | |
| SLC39 | Metal (M2+) ion transporter family | 14 | PF02535 | Zip | |
| SLC40 | Basolateral iron transporter family | 1 | PF06963 | FPN1 | |
| SLC41 | MgtE-like Mg2+ transporter family | 3 | PF01769 | MgtE | |
| SLC42 | Rh-associated glycoproteins; NH4+ transporter family | 3 | |||
| SLC43 | Na+-independent system-L-like amino acid transporter family | 3 | |||
| SLC44 | Choline-like transmembrane transporter activity | 5 | PF04515 | DUF580 | |
| SLC45 | Putative sugar/H+ symporter activity | 4 | PF07690 | MFS_1 | |
| SLC46 | Folic acid transporter (heme-containing) activity | 3 | PF07690 | MFS_1 | |
| SLC47 | Polyspecific H+/organic cation exporter | 2 | PF01554 | MatE | |
| SLCO1 | Drug, organic anion transporter family | 4 | PF07648 | OATP | |
| PF03137 | |||||
| SLCO2 | Prostaglandin and steroid sulphate transporter family | 2 | PF07648 | OATP | |
| PF03137 | |||||
| SLCO3 | Drug and organic anion transporter activity | 1 | PF07648 | OATP | |
| PF03137 | KAzal_2 | ||||
| SLCO4 | Thyroid hormone transmembrane transporter activity | 2 | PF07648 | OATP | |
| PF03137 | |||||
| SLCO5 | Drug and organic anion transporter activity | 1 | PF07648 | OATP | |
| PF03137 | |||||
| SLCO6 | Drug and organic anion transporter activity | 1 | PF07648 | OATP | |
| PF03137 | Kazal_2 | ||||
| UCP1 | Oxidative phosphorylation uncoupling activity (proton carrier) | 1 | PF00153 | Mito_carr | |
| UCP2 | Oxidative phosphorylation uncoupling activity (proton carrier) | 1 | PF00153 | Mito_carr | |
| UCP3 | Oxidative phosphorylation uncoupling activity (proton carrier) | 1 | PF00153 | Mito_carr |
The numbers of documented pseudogenes ('pseudo'), to date, are noted in the 'Number of members' column; these numbers are likely to be gross underestimates, however, because if one does a BLAST search with each exon, numerous 'bits and pieces' of the gene plus detritus exons will probably be discovered [2].
Figure 1Dendrogram of a representative member of each of the 55 human . To avoid clutter, we have selected only the first member of each family, although most families have two or more members. We also added two unrelated 'outlier' genes (SOD1 and CYP1A1) and two additional members of the SLC39 family (SLC39A2 and SLC39A3) as 'internal controls'. This nearest neighbour-joining (NNJ) method uses only global alignments of the entire protein sequences. In this case, although the NNJ method appears to gives various branches of different lengths, reflecting the presumed time since evolutionary divergence of the various branches of the gene tree, this tree is largely an artefact because the superfamily has mainly been pulled together by nomenclature experts who based this superfamily on function, rather than evolutionary divergence (see text).